Instructor: Eldon Emberly Office: SCB9684 Phone:
23701 e-mail: eemberly_at_sfu_dot_ca
Syllabus
Important
Dates:
Oct 11 – Midterm 1 (in class)
Nov 8 -
Midterm 2 (in class)
Dec 1 – Last class
Dec 13 – Final exam 12:00-3:00 PM (room TBA)
Rescheduled Lectures:
Fri Sept 30: 2:30-3:20 (room
TBA)
Tue Oct 18: 1:30-2:20 (room TBA) – NEW DATE TBA
Lectures:
Lecture 1: Scaling
laws in biology Scaling
figures & table
Lecture 2&3: Summary
of Molecular Biology (43 pages)
Cellular Census Notes
Timescales
Notes
Lecture 4, 5, 6: Heat
& Free Energy Concepts Energy,
Equilibrium and Cells Glimpse
at Mech Energy and Entropy
Lecture 7, 8, 9, (10):
Probability
Theory and Kinetic Theory Information
& Entropy The
Boltzmann Distribution
Lecture 11, 12: Receptor
Binding, Cooperativity & Hill Functions
Lecture 13,
14, 15, 16: RNA folding
Protein Folding
Chromosome Structure &
Freely Jointed Chain
Lecture 17, 18, 19: Biologial
Beams: Bending energy, Worm-like-chain Bending
energy applications
Lecture 20, 21: Biological
Membranes Membrane
Energetics & Applications
Lecture 22, 23, 24:
Diffusion in Biology: Random
Walks and Fick's Equations
Lecture 25, 26: Water:
Life at low Reynold's Number
Lecture 27, 28: Osmotic
Pressure, Channels and Charge Screening - preview for neurons
Debye-Huckel Theory
Lecture 29, 30: Ion
channels: setting up membrane potentials
Lecture 31, 32:
Nerve impulses: Hodgkins-Huxley
Theory
Lecture 33: Last lecture - Cells as computers
Assignments:
Assignment #1 (due Sept 27 in class) DNA data (bdna.pdb)
Assignment #2 (due Oct 6 in class)
Assignment #3 (due Oct 20 in class)
Assignment #4 (due Nov 3 in class)
Assignment #5 (due Nov 17 in class)
Assignment #6 (due Dec 1 in class)